If more than 50 genes/sequences are provided as input, then the associated running time can take some time. Therefore it is advisable to provide an email-address in case you are running the Interactive Phylogenetics Module with more than 50 genes. After processing you will be send an email with a link to the created phylogenetic tree.
The selection modi are exclusive: please choose either Gene selection or Species selection.
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":"";
$selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":"";
$num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''
include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $species_info = array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) $local_species = 'zma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ), 'gf_id' => 'HOM05D001022', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001022' ), 'data_identifier' => 'HOM05D001022', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001022', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '593', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02030' => 'bna', 'A02p20810' => 'bna', 'A02p44490' => 'bna', 'A03p47930' => 'bna', 'A03p64670' => 'bna', 'A04p18070' => 'bna', 'A06p17070' => 'bna', 'A07p15320' => 'bna', 'A07p17380' => 'bna', 'A07p28430' => 'bna', 'A08p22460' => 'bna', 'A08p29120' => 'bna', 'A09p09920' => 'bna', 'A09p43850' => 'bna', 'A09p56830' => 'bna', 'Aa31LG1G15130' => 'aar', 'Aa31LG4G18930' => 'aar', 'Aa31LG4G6700' => 'aar', 'Aa31LG6G13700' => 'aar', 'Aa31LG7G13170' => 'aar', 'Aa31LG7G5180' => 'aar', 'Actinidia00488' => 'ach', 'Actinidia00489' => 'ach', 'Actinidia12093' => 'ach', 'Actinidia15541' => 'ach', 'Actinidia17834' => 'ach', 'Actinidia19139' => 'ach', 'Ah.01g019720' => 'amhyb', 'Ah.03g142180' => 'amhyb', 'AL1G34080' => 'aly', 'AL2G36740' => 'aly', 'AL4G13680' => 'aly', 'AL5G31020' => 'aly', 'AL7G14050' => 'aly', 'AL8G44930' => 'aly', 'Aqoxy5G00940' => 'aox', 'Aqoxy5G01737' => 'aox', 'Aqoxy6G00966' => 'aox', 'Aqoxy6G00967' => 'aox', 'Aqoxy6G00968' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2Z7XPV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D10I8V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IBEJ75' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUP4WK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RC4H1Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW9709' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V7YFUL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WWA0CR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WZE4UT' => 'arhy', 'AT1G21010' => 'ath', 'AT1G76600' => 'ath', 'AT2G23690' => 'ath', 'AT3G50800' => 'ath', 'AT4G37240' => 'ath', 'AT5G66580' => 'ath', 'ATR0605G267' => 'atr', 'ATR0733G048' => 'atr', 'Atru.chr13.23' => 'acertr', 'Atru.chr3.480' => 'acertr', 'Atru.chr3.481' => 'acertr', 'Atru.chr5.2910' => 'acertr', 'Atru.chr5.2912' => 'acertr', 'Atru.chr5.2913' => 'acertr', 'Atru.chr5.2914' => 'acertr', 'AUR62003226' => 'cqu', 'AUR62003227' => 'cqu', 'AUR62011382' => 'cqu', 'AUR62016677' => 'cqu', 'AUR62027247' => 'cqu', 'AUR62027248' => 'cqu', 'BcaB01g00580' => 'bca', 'BcaB02g07069' => 'bca', 'BcaB02g10011' => 'bca', 'BcaB03g12367' => 'bca', 'BcaB03g12839' => 'bca', 'BcaB03g14284' => 'bca', 'BcaB04g20119' => 'bca', 'BcaB05g24999' => 'bca', 'BcaB06g27925' => 'bca', 'BcaB07g32094' => 'bca', 'BcaC03g15690' => 'bca', 'BcaC04g23136' => 'bca', 'BcaC05g26011' => 'bca', 'BcaC05g28248' => 'bca', 'BcaC06g33080' => 'bca', 'BcaC06g33323' => 'bca', 'BcaC06g34720' => 'bca', 'BcaC07g39071' => 'bca', 'BcaC07g39542' => 'bca', 'BcaC07g40979' => 'bca', 'BcaC08g43154' => 'bca', 'BcaC08g45518' => 'bca', 'BcaNung03518' => 'bca', 'BcaNung03519' => 'bca', 'BcaNung03938' => 'bca', 'BcaNung03943' => 'bca', 'BcaNung04275' => 'bca', 'BolC1t00213H' => 'bol', 'BolC2t09412H' => 'bol', 'BolC3t20227H' => 'bol', 'BolC4t26862H' => 'bol', 'BolC5t30671H' => 'bol', 'BolC5t32999H' => 'bol', 'BolC6t35567H' => 'bol', 'BolC6t38318H' => 'bol', 'BolC7t42745H' => 'bol', 'BolC7t43053H' => 'bol', 'BolC7t45114H' => 'bol', 'BolC7t46625H' => 'bol', 'BolC8t49684H' => 'bol', 'BolC8t50213H' => 'bol', 'BolC8t51551H' => 'bol', 'BolC9t54069H' => 'bol', 'BraA01t00191Z' => 'bra', 'BraA02t07112Z' => 'bra', 'BraA02t09366Z' => 'bra', 'BraA03t13902Z' => 'bra', 'BraA03t15531Z' => 'bra', 'BraA04t17425Z' => 'bra', 'BraA06t24813Z' => 'bra', 'BraA07t29270Z' => 'bra', 'BraA07t30480Z' => 'bra', 'BraA08t34201Z' => 'bra', 'BraA08t34848Z' => 'bra', 'BraA09t36639Z' => 'bra', 'BraA09t39836Z' => 'bra', 'BraA09t39846Z' => 'bra', 'BraA09t41074Z' => 'bra', 'C01p02210' => 'bna', 'C02p32860' => 'bna', 'C03p79790' => 'bna', 'C04p53020' => 'bna', 'C05p19690' => 'bna', 'C05p33060' => 'bna', 'C06p31920' => 'bna', 'C07p22500' => 'bna', 'C07p25270' => 'bna', 'C07p45940' => 'bna', 'C07p62080' => 'bna', 'C08p20550' => 'bna', 'C08p25970' => 'bna', 'C08p39790' => 'bna', 'C09p11790' => 'bna', 'CANSAT01G0505' => 'cansat', 'CANSAT01G2372' => 'cansat', 'CANSAT25G0930' => 'cansat', 'CARHR021480' => 'chi', 'CARHR070160' => 'chi', 'CARHR114640' => 'chi', 'CARHR160340' => 'chi', 'CARHR245260' => 'chi', 'CARHR281160' => 'chi', 'Carub.0001s2049' => 'cru', 'Carub.0002s2350' => 'cru', 'Carub.0004s0290' => 'cru', 'Carub.0005s1715' => 'cru', 'Carub.0007s0343' => 'cru', 'Carub.0008s2793' => 'cru', 'Ca_22236_v3' => 'car', 'Ca_24812_v3' => 'car', 'Ca_24813_v3' => 'car', 'Ca_29959_v3' => 'car', 'Cc02_g18040' => 'ccan', 'Cc02_g18050' => 'ccan', 'Cc07_g05330' => 'ccan', 'CDE02G1203' => 'cde', 'CDE04G0613' => 'cde', 'CDE06G2753' => 'cde', 'Cfa004240' => 'cfa', 'Cfa004241' => 'cfa', 'Cfa014164' => 'cfa', 'Cfa021517' => 'cfa', 'Ciclev10002430m.g' => 'ccl', 'Ciclev10026684m.g' => 'ccl', 'Ciclev10029512m.g' => 'ccl', 'Ciclev10030005m.g' => 'ccl', 'Ciclev10030234m.g' => 'ccl', 'CiPaw.01G030000' => 'cil', 'CiPaw.01G030100' => 'cil', 'CiPaw.02G013700' => 'cil', 'CiPaw.05G059900' => 'cil', 'CiPaw.05G089100' => 'cil', 'CiPaw.06G138300' => 'cil', 'CiPaw.07G130400' => 'cil', 'CiPaw.08G078800' => 'cil', 'ClCG01G016340' => 'cla', 'ClCG02G012900' => 'cla', 'ClCG02G012930' => 'cla', 'ClCG09G017880' => 'cla', 'ClCG11G019190' => 'cla', 'COL.COLO4_12271' => 'col', 'COL.COLO4_17792' => 'col', 'COL.COLO4_17794' => 'col', 'COL.COLO4_22167' => 'col', 'COL.COLO4_22169' => 'col', 'Cpa.g.sc1507.1' => 'cpa', 'Cpa.g.sc62.95' => 'cpa', 'CsaV3_2G014500' => 'csa', 'CsaV3_2G016980' => 'csa', 'CsaV3_2G017020' => 'csa', 'CsaV3_4G037790' => 'csa', 'CsaV3_6G042660' => 'csa', 'CSS0001154' => 'camsi', 'CSS0006600' => 'camsi', 'CSS0038502' => 'camsi', 'CSS0046751' => 'camsi', 'DCAR_001600' => 'dca', 'DCAR_003635' => 'dca', 'DCAR_009851' => 'dca', 'DCAR_010950' => 'dca', 'DCAR_013952' => 'dca', 'DCAR_025664' => 'dca', 'Dinv23566' => 'din', 'Dinv26783' => 'din', 'Dinv39931' => 'din', 'Duzib052G0938' => 'dzi', 'Duzib093G0093' => 'dzi', 'Duzib116G0628' => 'dzi', 'Duzib147G0527' => 'dzi', 'Duzib187G1229' => 'dzi', 'ECA232G0650' => 'eca', 'ECA236G0408' => 'eca', 'ECA238G0262' => 'eca', 'ECA238G4835' => 'eca', 'ECA240G4642' => 'eca', 'EL10Ac6g14855' => 'bvu', 'EL10Ac6g14856' => 'bvu', 'EL10Ac9g21775' => 'bvu', 'Eucgr.F01951' => 'egr', 'Eucgr.F03622' => 'egr', 'Eucgr.G00481' => 'egr', 'Eucgr.G00482' => 'egr', 'Eucgr.G00483' => 'egr', 'Eucgr.G00484' => 'egr', 'Eucgr.G00485' => 'egr', 'Eucgr.G00487' => 'egr', 'Eucgr.G00488' => 'egr', 'Eucgr.G00489' => 'egr', 'Eucgr.G01546' => 'egr', 'Eucgr.G01889' => 'egr', 'Eucgr.H01932' => 'egr', 'Eucgr.I01029' => 'egr', 'Eucgr.I01235' => 'egr', 'FAN04G1503' => 'fan', 'FAN08G0529' => 'fan', 'FAN13G2725' => 'fan', 'FAN15G2883' => 'fan', 'FAN18G3049' => 'fan', 'FAN19G0195' => 'fan', 'FAN19G0870' => 'fan', 'FAN20G0072' => 'fan', 'FAN20G2470' => 'fan', 'FAN23G1963' => 'fan', 'FAN24G3202' => 'fan', 'FAN26G0868' => 'fan', 'FAN26G1070' => 'fan', 'FAN27G1037' => 'fan', 'FAN28G1297' => 'fan', 'FvH4_1g14390' => 'fve', 'FvH4_1g14400' => 'fve', 'FvH4_2g07750' => 'fve', 'FvH4_2g07760' => 'fve', 'FvH4_5g26600' => 'fve', 'Glyma.01G180432' => 'gma', 'Glyma.01G180500' => 'gma', 'Glyma.02G060900' => 'gma', 'Glyma.11G061800' => 'gma', 'Glyma.11G061900' => 'gma', 'Glyma.11G121900' => 'gma', 'Glyma.12G046800' => 'gma', 'Glyma.16G143400' => 'gma', 'Gohir.A01G101400' => 'ghi', 'Gohir.A02G161800' => 'ghi', 'Gohir.A03G213700' => 'ghi', 'Gohir.A04G129100' => 'ghi', 'Gohir.A11G187700' => 'ghi', 'Gohir.A11G187900' => 'ghi', 'Gohir.A12G030701' => 'ghi', 'Gohir.A12G067100' => 'ghi', 'Gohir.A12G067200' => 'ghi', 'Gohir.D01G086500' => 'ghi', 'Gohir.D02G235200' => 'ghi', 'Gohir.D03G018600' => 'ghi', 'Gohir.D04G174200' => 'ghi', 'Gohir.D11G194300' => 'ghi', 'Gohir.D11G194400' => 'ghi', 'Gohir.D12G041664' => 'ghi', 'Gohir.D12G067600' => 'ghi', 'Gohir.D12G067701' => 'ghi', 'Gorai.002G112100' => 'gra', 'Gorai.003G019100' => 'gra', 'Gorai.005G263300' => 'gra', 'Gorai.007G207600' => 'gra', 'Gorai.007G207700' => 'gra', 'Gorai.008G043600' => 'gra', 'Gorai.008G071000' => 'gra', 'Gorai.008G071100' => 'gra', 'Gorai.012G163600' => 'gra', 'GSVIVG01003763001' => 'vvi', 'GSVIVG01003765001' => 'vvi', 'GSVIVG01013456001' => 'vvi', 'GSVIVG01031898001' => 'vvi', 'HanXRQChr02g0035581' => 'han', 'HanXRQChr03g0074381' => 'han', 'HanXRQChr04g0128471' => 'han', 'HanXRQChr04g0128491' => 'han', 'HanXRQChr04g0128501' => 'han', 'HanXRQChr06g0185321' => 'han', 'HanXRQChr07g0200281' => 'han', 'HanXRQChr09g0264351' => 'han', 'HanXRQChr10g0313611' => 'han', 'HanXRQChr11g0327351' => 'han', 'HanXRQChr12g0378431' => 'han', 'HanXRQChr14g0447901' => 'han', 'HanXRQChr15g0472981' => 'han', 'HanXRQChr15g0490541' => 'han', 'Haze_02432' => 'cav', 'Haze_15156' => 'cav', 'Haze_15157' => 'cav', 'Haze_22886' => 'cav', 'Hma1.2p1_0584F.1_g183400' => 'hma', 'Hma1.2p1_0584F.1_g183420' => 'hma', 'Hma1.2p1_0914F.1_g236190' => 'hma', 'HPP92_018861' => 'vpl', 'HPP92_018880' => 'vpl', 'HPP92_019659' => 'vpl', 'HPP92_019660' => 'vpl', 'HPP92_019661' => 'vpl', 'HPP92_022017' => 'vpl', 'HPP92_022022' => 'vpl', 'HPP92_023790' => 'vpl', 'Hund14123' => 'sun', 'Lalb_Chr01g0002861' => 'lal', 'Lalb_Chr01g0002871' => 'lal', 'Lalb_Chr05g0213061' => 'lal', 'Lalb_Chr05g0227291' => 'lal', 'Lalb_Chr09g0322791' => 'lal', 'Lalb_Chr09g0322801' => 'lal', 'Lalb_Chr09g0333651' => 'lal', 'Lalb_Chr16g0378041' => 'lal', 'Lalb_Chr16g0378291' => 'lal', 'Lj2g0001245' => 'lja', 'Lj3g0008290' => 'lja', 'Lj3g0008545' => 'lja', 'Lj4C2T6' => 'lonja', 'Lj4g0005781' => 'lja', 'Lj4P135T35' => 'lonja', 'Lj7C14G8' => 'lonja', 'Lj9C365T10' => 'lonja', 'Lj9C365T9' => 'lonja', 'Lj9P365T34' => 'lonja', 'Lsat_1_v5_gn_2_2021' => 'lsa', 'Lsat_1_v5_gn_2_2080' => 'lsa', 'Lsat_1_v5_gn_2_87161' => 'lsa', 'Lsat_1_v5_gn_3_93020' => 'lsa', 'Lsat_1_v5_gn_4_178480' => 'lsa', 'Lsat_1_v5_gn_7_90001' => 'lsa', 'Lsat_1_v5_gn_7_90081' => 'lsa', 'Manes.05G136500' => 'mes', 'Manes.12G096900' => 'mes', 'Manes.12G097000' => 'mes', 'Manes.13G133000' => 'mes', 'Manes.13G133100' => 'mes', 'Manes.15G146900' => 'mes', 'Manes.15G147000' => 'mes', 'Manes.17G098000' => 'mes', 'Manes.17G098100' => 'mes', 'Manes.18G000675' => 'mes', 'MBI04_g46579_MAGBIO' => 'mbi', 'MBI14_g38746_MAGBIO' => 'mbi', 'MBI16_g13163_MAGBIO' => 'mbi', 'MBI16_g36200_MAGBIO' => 'mbi', 'MD02G1157500' => 'mdo', 'MD07G1142400' => 'mdo', 'MD10G1084100' => 'mdo', 'MD10G1084300' => 'mdo', 'MD15G1272000' => 'mdo', 'MD15G1272100' => 'mdo', 'Medtr4g068850' => 'mtr', 'Medtr5g018720' => 'mtr', 'Medtr5g018750' => 'mtr', 'Medtr8g078790' => 'mtr', 'MELO3C007505.2' => 'cme', 'MELO3C017072.2' => 'cme', 'MELO3C020881.2' => 'cme', 'MELO3C020884.2' => 'cme', 'Migut.C00335' => 'egut', 'Migut.H00509' => 'egut', 'Migut.N01218' => 'egut', 'Migut.N03000' => 'egut', 'MSTRG.15409' => 'ama', 'MSTRG.22070' => 'ama', 'MSTRG.22071' => 'ama', 'MSTRG.23810' => 'ama', 'MSTRG.2926' => 'ama', 'MSTRG.8564' => 'ama', 'Nitab4.5_0000090g0090' => 'nta', 'Nitab4.5_0000108g0080' => 'nta', 'Nitab4.5_0000382g0120' => 'nta', 'Nitab4.5_0000483g0080' => 'nta', 'Nitab4.5_0003364g0060' => 'nta', 'Nitab4.5_0003580g0050' => 'nta', 'Nitab4.5_0003816g0120' => 'nta', 'Nitab4.5_0009967g0030' => 'nta', 'Nitab4.5_0012787g0020' => 'nta', 'Nitab4.5_0019627g0010' => 'nta', 'Nn1g04095' => 'nnu', 'Nn1g05141' => 'nnu', 'Nn1g05143' => 'nnu', 'Nn1g05688' => 'nnu', 'Nn1g05974' => 'nnu', 'Nn1g06209' => 'nnu', 'Nn3g19538' => 'nnu', 'Nn4g24514' => 'nnu', 'Nn5g29453' => 'nnu', 'Nn5g29456' => 'nnu', 'Nn6g31570' => 'nnu', 'Oeu003958.1' => 'oeu', 'Oeu010880.1' => 'oeu', 'Oeu030370.1' => 'oeu', 'Oeu039066.1' => 'oeu', 'Oeu039067.1' => 'oeu', 'Oeu043827.1' => 'oeu', 'Os02g0193100' => 'osa', 'Os02g0193200' => 'osa', 'Os02g0193300' => 'osa', 'Os03g0740200' => 'osa', 'Os03g0768900' => 'osa', 'Os06g0259850' => 'osa', 'Os07g0123100' => 'osa', 'Os09g0492900' => 'osa', 'Os09g0493000' => 'osa', 'Peaxi162Scf00003g01410' => 'pax', 'Peaxi162Scf00019g00201' => 'pax', 'Peaxi162Scf00385g00111' => 'pax', 'Peaxi162Scf00535g00057' => 'pax', 'Peaxi162Scf00589g00055' => 'pax', 'PGR031G0114' => 'pgr', 'PGR042G0153' => 'pgr', 'PGR083G1280' => 'pgr', 'PGR102G1914' => 'pgr', 'PGR119G1415' => 'pgr', 'PGSC0003DMG400002780' => 'stu', 'PGSC0003DMG400009932' => 'stu', 'PGSC0003DMG400010038' => 'stu', 'PGSC0003DMG400022916' => 'stu', 'PGSC0003DMG400025163' => 'stu', 'Phvul.002G024200' => 'pvu', 'Phvul.002G024300' => 'pvu', 'Phvul.003G250000' => 'pvu', 'Phvul.011G048800' => 'pvu', 'Potri.002G002100' => 'ptr', 'Potri.004G149600' => 'ptr', 'Potri.004G149800' => 'ptr', 'Potri.005G130200' => 'ptr', 'Potri.005G259100' => 'ptr', 'Potri.007G033400' => 'ptr', 'Potri.009G110600' => 'ptr', 'Potri.009G110700' => 'ptr', 'Prupe.5G001600' => 'ppe', 'Prupe.7G146200' => 'ppe', 'Prupe.8G107400' => 'ppe', 'Prupe.8G107500' => 'ppe', 'Psat2g163320' => 'psa', 'Psat2g163480' => 'psa', 'Psat4g090040' => 'psa', 'Psat7g205840' => 'psa', 'PSO017G2479' => 'pso', 'PSO170G0755' => 'pso', 'PSO170G4433' => 'pso', 'PSO541G6233' => 'pso', 'PSO675G0576' => 'pso', 'PSO675G0748' => 'pso', 'PSO700G0122' => 'pso', 'PSO700G0176' => 'pso', 'QL02p016243' => 'qlo', 'QL06p044369' => 'qlo', 'QL06p044388' => 'qlo', 'QL11p029384' => 'qlo', 'QL11p039636' => 'qlo', 'QL11p039652' => 'qlo', 'QL11p039675' => 'qlo', 'RcHm_v2.0_Chr2g0103101' => 'rch', 'RcHm_v2.0_Chr2g0103121' => 'rch', 'RcHm_v2.0_Chr6g0262091' => 'rch', 'RcHm_v2.0_Chr6g0262101' => 'rch', 'RcHm_v2.0_Chr6g0271951' => 'rch', 'RcHm_v2.0_Chr6g0271961' => 'rch', 'RcHm_v2.0_Chr7g0217541' => 'rch', 'Rhsim06G0001000' => 'rsi', 'Rhsim08G0110000' => 'rsi', 'Rhsim11G0172200' => 'rsi', 'Rhsim11G0172300' => 'rsi', 'Rhsim11G0172400' => 'rsi', 'Rhsim11G0172500' => 'rsi', 'Sabra02G0001400' => 'sbr', 'Sabra04G0099500' => 'sbr', 'Sabra04G0099600' => 'sbr', 'Sabra05G0200700' => 'sbr', 'Sabra07G0029200' => 'sbr', 'Sabra09G0084400' => 'sbr', 'SalBow1G8238' => 'sbo', 'SalBow2G0149' => 'sbo', 'SalBow3G0417' => 'sbo', 'SalBow6G0784' => 'sbo', 'SalBow6G5469' => 'sbo', 'SalBow7G1958' => 'sbo', 'Sc03g0001110' => 'sci', 'Sc07g0000200' => 'sci', 'Sc16g0001240' => 'sci', 'Sed0002379' => 'sed', 'Sed0004424' => 'sed', 'Sed0005674' => 'sed', 'Sed0009219' => 'sed', 'Sed0012150' => 'sed', 'Sed0014286' => 'sed', 'Sed0018521' => 'sed', 'SEGI_02467' => 'sgi', 'SEGI_06397' => 'sgi', 'SEGI_08208' => 'sgi', 'SEGI_15738' => 'sgi', 'SEGI_19165' => 'sgi', 'SEGI_20159' => 'sgi', 'SEGI_31538' => 'sgi', 'SGA_v2.0_scaffold15G07193' => 'sas', 'SGA_v2.0_scaffold204G41631' => 'sas', 'SGA_v2.0_scaffold220G42602' => 'sas', 'SGA_v2.0_scaffold26G11294' => 'sas', 'SGA_v2.0_scaffold32G13136' => 'sas', 'SGA_v2.0_scaffold32G13139' => 'sas', 'SHI08689' => 'shi', 'Solyc01g109250.2' => 'sly', 'Solyc02g065430.1' => 'sly', 'Solyc02g089990.1' => 'sly', 'Solyc03g044860.1' => 'sly', 'Solyc04g082960.1' => 'sly', 'Sopen01g051410' => 'spe', 'Sopen02g015630' => 'spe', 'Sopen02g034680' => 'spe', 'Sopen04g036590' => 'spe', 'Sp1g18710' => 'spa', 'Sp2g30130' => 'spa', 'Sp5g11420' => 'spa', 'Sp5g31770' => 'spa', 'Sp7g34540' => 'spa', 'TAR376G0150' => 'tar', 'TAR381G0082' => 'tar', 'TAR381G0982' => 'tar', 'TAR625G0641' => 'tar', 'TAR625G0663' => 'tar', 'TAR625G0881' => 'tar', 'TAR628G0974' => 'tar', 'THA.LOC104804221' => 'tha', 'THA.LOC104807563' => 'tha', 'THA.LOC104809985' => 'tha', 'THA.LOC104812024' => 'tha', 'THA.LOC104813724' => 'tha', 'THA.LOC104819208' => 'tha', 'THA.LOC104819818' => 'tha', 'THA.LOC104826784' => 'tha', 'Thecc.01G044700' => 'tca', 'Thecc.01G045000' => 'tca', 'Thecc.02G030900' => 'tca', 'Thecc.08G097900' => 'tca', 'Thhalv10000358m.g' => 'esa', 'Thhalv10008766m.g' => 'esa', 'Thhalv10010783m.g' => 'esa', 'Thhalv10019130m.g' => 'esa', 'Thhalv10026416m.g' => 'esa', 'TPR.G11245' => 'tpr', 'TPR.G29846' => 'tpr', 'TPR.G29851' => 'tpr', 'TPR.G29889' => 'tpr', 'TWI09G0184' => 'twi', 'TWI56G1371' => 'twi', 'unitig_578.g16102' => 'ugi', 'unitig_8.g4906' => 'ugi', 'unitig_899.g15140' => 'ugi', 'vmacro02152' => 'vma', 'vmacro21737' => 'vma', 'VMungo0251G0446' => 'vmu', 'VMungo1127G0593' => 'vmu', 'VMungo1215G0465' => 'vmu', 'VMungo1215G0964' => 'vmu', 'Zm00001eb056610' => 'zma', 'Zm00001eb117910' => 'zma', 'Zm00001eb213950' => 'zma', 'Zm00001eb215240' => 'zma', 'Zm00001eb236550' => 'zma', 'Zm00001eb275650' => 'zma', 'Zm00001eb317010' => 'zma', 'Zm00001eb317020' => 'zma', 'Zm00001eb387820' => 'zma' ) $gf_id = 'HOM05D001022' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001022' ) $data_identifier = 'HOM05D001022' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 6, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 5, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 6, 'bca' => (int) 27, 'bol' => (int) 16, 'bra' => (int) 15, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 8, 'cla' => (int) 5, 'col' => (int) 5, 'cpa' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 4, 'dca' => (int) 6, 'din' => (int) 3, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 15, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 8, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 14, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 1, 'lal' => (int) 9, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 7, 'mes' => (int) 10, 'mbi' => (int) 4, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 10, 'nnu' => (int) 11, 'oeu' => (int) 6, 'osa' => (int) 9, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 7, 'sgi' => (int) 7, 'sas' => (int) 6, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 2, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb387820' $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